Locus 3852

Sequence ID 2L_DroMel_CAF1
Location 11,284,870 – 11,285,027
Length 157
Max. P 0.779734
window6069 window6070

overview

Window 9

Location 11,284,870 – 11,284,987
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.55
Mean single sequence MFE -35.95
Consensus MFE -25.50
Energy contribution -25.34
Covariance contribution -0.16
Combinations/Pair 1.24
Mean z-score -1.66
Structure conservation index 0.71
SVM decision value 0.55
SVM RNA-class probability 0.779734
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11284870 117 - 22407834
CCCUGACCAUUGCCGGGAUCAUUGCGCUCAAGAAGCUCUUCUCGCACGACCACAGCGAGGAGACCAGCUUCCAGGUGCACGCCGGUGAACAUAACAGGUAAGCCUUAAGCUGUAGUC
.((((....(..(((((.....((((((...((((((((((((((.........)))))))))...)))))..))))))).))))..)......))))..(((.....)))...... ( -39.80)
>DroVir_CAF1 6585 112 - 1
CCCUCACCAUAGCGGGCAUAAUAGCGCUUAAGAAGCUCUUUUCACAUGAUCACAGCGAAGAGACCAGCUUCCAAGUGCAUGCCGGCGAGCACAACAGGUAAAUCUGA-----UUCCC
...........((.(((((....((((((..((((((((((((.(.((....))).)))))))...))))).))))))))))).))........((((....)))).-----..... ( -32.80)
>DroGri_CAF1 4816 112 - 1
CGUUAACCAUUGCCGGGAUAAUAGCGCUGAAGAAGCUCUUCUCGCACGACCACAGCGAAGAGUCCAGCUUUCAGGUGCAUGCCGGCGACCACAACAGGUAAUUAUCU-----CUGUC
.........(((((((.((....(((((...((((((((..((((.........))))..))...))))))..))))))).))))))).....(((((........)-----)))). ( -34.40)
>DroYak_CAF1 4158 108 - 1
CAUUGACCAUUGCCGGGAUCAUUGCGCUCAAGAAACUCUUCUCGCACGACCACAGCGAGGAGACCAGCUUCCAGGUGCAUGCCGGUGAACAUAACAGGUAAGUCUUCA---------
....(((..(..((((.(....((((((.(((....(((((((((.........)))))))))....)))...))))))).))))..)((.......))..)))....--------- ( -31.50)
>DroMoj_CAF1 8751 112 - 1
CCCUGACCAUUGCGGGCAUAAUAGCGCUCAAGAAGCUCUUCUCGCACGAUCACAGCGAGGAGACCAGCUUCCAGGUGCACGCCGGCGAGCACAACAGGUAACUCUGA-----CCCUC
.((((....((((.(((......(((((...((((((((((((((.........)))))))))...)))))..)))))..))).))))......)))).........-----..... ( -39.40)
>DroAna_CAF1 4097 105 - 1
CCCUGACCAUAGCAGGGAUCAUUGCACUAAAGAAGCUCUUCUCGCACGACCACAGCGAGGAGACCAGUUUUCAGGUGCACGCCGGUGAUCACAACAGGUGAGUG---A---------
(((((.......))))).((((((((((...((((((((((((((.........)))))))))...)))))..))))).((((.((.......)).))))))))---)--------- ( -37.80)
>consensus
CCCUGACCAUUGCCGGGAUAAUAGCGCUCAAGAAGCUCUUCUCGCACGACCACAGCGAGGAGACCAGCUUCCAGGUGCACGCCGGCGAACACAACAGGUAAGUCUGA________UC
......((......)).......(((((...((((((((((((((.........))))))))...))))))..))))).((((.............))))................. (-25.50 = -25.34 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,284,907 – 11,285,027
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.67
Mean single sequence MFE -45.73
Consensus MFE -31.69
Energy contribution -31.50
Covariance contribution -0.19
Combinations/Pair 1.35
Mean z-score -2.53
Structure conservation index 0.69
SVM decision value 0.38
SVM RNA-class probability 0.714337
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11284907 120 - 22407834
GCCGCGAUCGCCGGCAAGGCUCUGGUCAUCAGCAAGGUGGCCCUGACCAUUGCCGGGAUCAUUGCGCUCAAGAAGCUCUUCUCGCACGACCACAGCGAGGAGACCAGCUUCCAGGUGCAC
.....((((.(((((((((.((.(((((((.....)))))))..)))).)))))))))))..((((((...((((((((((((((.........)))))))))...)))))..)))))). ( -58.60)
>DroVir_CAF1 6617 120 - 1
GCCGCUAUUGCCGGCAAGGCGCUGGUAAUCAGUAAAGUGGCCCUCACCAUAGCGGGCAUAAUAGCGCUUAAGAAGCUCUUUUCACAUGAUCACAGCGAAGAGACCAGCUUCCAAGUGCAU
.((((((((((((((.....))))))))).......((((......)))))))))........((((((..((((((((((((.(.((....))).)))))))...))))).)))))).. ( -43.10)
>DroGri_CAF1 4848 120 - 1
GCAGCUAUAGCUGGCAAGGCACUGGUCAUCAGCAAAGUGGCGUUAACCAUUGCCGGGAUAAUAGCGCUGAAGAAGCUCUUCUCGCACGACCACAGCGAAGAGUCCAGCUUUCAGGUGCAU
(((.((..(((((((...((..((((((((.(((..((((......)))))))...)))....(((..((((.....)))).)))..)))))..)).....).))))))...)).))).. ( -39.80)
>DroWil_CAF1 14037 120 - 1
GCAGCAAUUGCUGGUAAAGCAUUGGUAAUCAGCAAGGUUGCUCUAACCAUAGCUGGAAUUAUAGCUCUGAAGAAACUCUUUUCGCAUGAUCACAGCGAAGAGACAAGCUUUCAGGUCCAU
(((((..((((((((...((....)).)))))))).))))).........(((((......)))))((((((....(((((((((.((....)))))))))))....).)))))...... ( -35.60)
>DroMoj_CAF1 8783 120 - 1
GCCGCUAUUGCCGGCAAGGCGCUUGUGAUUAGCAAGGUCGCCCUGACCAUUGCGGGCAUAAUAGCGCUCAAGAAGCUCUUCUCGCACGAUCACAGCGAGGAGACCAGCUUCCAGGUGCAC
(((((....).))))...(((((((......((((((((.....)))).))))((((........))))..((((((((((((((.........)))))))))...)))))))))))).. ( -50.20)
>DroAna_CAF1 4122 120 - 1
GCGGCGAUUGCCGGCAAGGCGCUGGUCAUCAGCAAGGUGGCCCUGACCAUAGCAGGGAUCAUUGCACUAAAGAAGCUCUUCUCGCACGACCACAGCGAGGAGACCAGUUUUCAGGUGCAC
...(((((.((((((.....)))))).))).))..((((((((((.......))))).)))))(((((...((((((((((((((.........)))))))))...)))))..))))).. ( -47.10)
>consensus
GCCGCUAUUGCCGGCAAGGCGCUGGUCAUCAGCAAGGUGGCCCUGACCAUAGCCGGGAUAAUAGCGCUCAAGAAGCUCUUCUCGCACGACCACAGCGAAGAGACCAGCUUCCAGGUGCAC
...((....(((.....)))...(((((((.....))))))).........))..........(((((...((((((((((((((.........))))))))...))))))..))))).. (-31.69 = -31.50 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:01 2006